$quality =~ tr/[\!-\*][\+-4][5-\>][\?-\~]/0123/;

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tr doesn't do character classes.  The two strings specify lists of characters (with ranges allowed) that must correspond. For example, to replace A-D with 1 and F-H with 2, you'd say 

    tr/A-DF-H/1111222/;

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In reply to Re: using tr by Eliya
in thread using tr by bioBob

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